Regulation of clustered gene expression by cofactor of BRCA1 (COBRA1) in breast cancer cells

Oncogene

Volumn 26, Issue 18, 2007, Pages 2543-2553

  Aiyar, S E ^a   Blair, A L ^a   Hopkinson, D A ^a   Bekiranov, S ^a   Li, R ^a  

^a UNIVERSITY OF VIRGINIA   (United States)

Author keywords

Clustered gene expression; COBRA1; Estrogen; NELF; Transcription

Indexed keywords

COFACTOR OF BRCA1 PROTEIN; ELONGATION FACTOR; SHORT HAIRPIN RNA; UNCLASSIFIED DRUG;

ARTICLE; BREAST CANCER; CANCER CELL CULTURE; CHROMOSOME 21; CONTROLLED STUDY; DISEASE COURSE; GENE CLUSTER; GENE CONTROL; GENE EXPRESSION; GENE TARGETING; HUMAN; HUMAN CELL; PRIORITY JOURNAL; X CHROMOSOME;

EUKARYOTA; LOTUS;

EID: 34247508145     PISSN: 09509232     EISSN: 14765594     Source Type: Journal    
DOI: 10.1038/sj.onc.1210047     Document Type: Article

References (71)

1. Aiyar SE, Sun J-L, Blair AL, Moskaluk CA, Lv Y, Ye Q-N et al. (2004). Attenuation of estrogen receptor alpha-mediated transcription through estrogen-stimulated recruitment of a negative elongation factor. Genes Dev 18: 2134-2146.
2. Anderson CL, Brown CJ. (1999). Polymorphic X-chromosome inactivation of the human TIMP1 gene. Am J Hum Genet 65: 699-708.
3. Anderson CL, Brown CJ. (2002). Variability of X chromosome inactivation: effect on levels of TIMP1 RNA and role of DNA methylation. Hum Genet 110: 271-278.
4. Balleine RL, Clarke CL. (1999). Expression of the oestrogen responsive protein pS2 in human breast cancer. Histol Histopathol 14: 571-578.
5. Banerjee S, Saxena N, Sengupta K, Tawfik O, Mayo MS, Banerjee SK. (2003). WISP-2 gene in human breast cancer: estrogen and progesterone inducible expression and regulation of tumor cell proliferation. Neoplasia 5: 63-73.
6. Blais Y, Sugimoto K, Carriere MC, Haagensen DE, Labrie F, Simard J. (1995). Interleukin-6 inhibits the potent stimulatory action of androgens, glucocorticoids and interleukin-1 alpha on apolipoprotein D and GCDFP-15 expression in human breast cancer cells. Int J Cancer 62: 732-737.
7. Bodey B. (2002). Cancer-testis antigens: promising targets for antigen directed antineoplastic immunotherapy. Expert Opin Biol Ther 2: 577-584.
8. Burton JD, Ely S, Reddy PK, Stein R, Gold DV, Cardillo TM et al. (2004). CD74 is expressed by multiple myeloma and is a promising target for therapy. Clin Cancer Res 10: 6606-6611.
9. Caron H, van Schaik B, van der Mee M, Baas F, Riggins G, van Sluis P et al. (2001). The human transcriptome map: clustering of highly expressed genes in chromosomal domains. Science 291: 1289-1292.
10. Carroll JS, Liu S, Brodsky AS, Li W, Meyer CA, Szary AJ et al. (2005). Chromosome-wide mapping of estrogen receptor binding reveals long-range regulation requiring the forkhead protein FoxA1. Cell 122: 33-43.
11. Carsol JL, Gingras S, Simard J. (2002). Synergistic action of prolactin (PRL) and androgen on PRL-inducible protein gene expression in human breast cancer cells: a unique model for functional cooperation between signal transducer and activator of transcription-5 and androgen receptor. Mol Endocrinol 16: 1696-1710.
12. Chen L, O'Bryan JP, Smith HS, Liu E. (1990). Overexpression of matrix Gla protein mRNA in malignant human breast cells: isolation by differential cDNA hybridization. Oncogene 5: 1391-1395.
13. Chen ME, Lin SH, Chung LW, Sikes RA. (1998). Isolation and characterization of PAGE-1 and GAGE-7. New genes expressed in the LNCaP prostate cancer progression model that share homology with melanoma-associated antigens. J Biol Chem 273: 17618-17625.
14. Chinery R, Williamson J, Poulsom R. (1995). The gene encoding human intestinal trefoil factor (TFF3) is located on chromosome 21q22.3 clustered with other members of the trefoil peptide family. Genomics 32: 281-284.
15. Cho RJ, Campbell MJ, Winzeler EA, Steinmetz L, Conway A, Wodicka L et al. (1998). A genome-wide transcriptional analysis of the mitotic cell cycle. Mol Cell 2: 65-73.
16. Clark JW, Snell L, Shiu RP, Orr FW, Maitre N, Vary CP et al. (1999). The potential role for prolactin-inducible protein (PIP) as a marker of human breast cancer micrometastasis. Br J Cancer 81: 1002-1008.
17. de Backer O, Arden KC, Boretti M, Vantomme V, De Smet C, Czekay S et al. (1999). Characterization of the GAGE genes that are expressed in various human cancers and normal testis. Cancer Res 59: 3157-3165.
18. Dhawan P, Singh AB, Deane NG, No Y, Shiou SR, Schmidt C et al. (2005). Claudin-1 regulates cellular transformation and metastatic behavior in colon cancer. J Clin Invest 115: 1765-1776.
19. Duan Z, Duan Y, Lamendola DE, Yusuf RZ, Naeem R, Penson RT et al. (2003). Overexpression of MAGE/GAGE in paclitaxel/doxorubicin-resistant human cancer cell lines. Clin Cancer Res 9: 2778-2785.
20. Fan S, Ma YX, Wang C, Yuan RQ, Meng Q, Wang JA et al. (2001). Role of direct interaction in BRCA1 inhibition of estrogen receptor activity. Oncogene 20: 77-87.
21. Fata JE, Werb Z, Bissell MJ. (2004). Regulation of mammary gland branching morphogenesis by the extracellular matrix and its remodeling enzymes. Breast Cancer Res 6: 1-11.
22. Gallagher PG, Bao Y, Serrano SMT, Kamiguti AS, Theakston RDG, Fox JW. (2003). Use of microarrays for investigating the subtoxic effects of snake venoms: insights into venom-induced apoptosis in human umbilical vein endothelial cells. Toxicon 41: 429-440.
23. Ganesan S, Silver DP, Greenberg RA, Avni D, Drapkin R, Miron A et al. (2002). BRCA1 supports XIST RNA concentration on the inactive X chromosome. Cell 111: 393-405.
24. Gonzalez MA, Pinder SE, Callagy G, Vowler SL, Morris LS, Bird K et al. (2003). Minichromosome maintenance protein 2 is a strong independent prognostic marker in breast cancer. J Clin Oncol 21: 4306-4313.
25. Gott P, Beck S, Machado JC, Carneiro F, Schmitt H, Blin N. (1996). Human trefoil peptides: genomic structure in 21q22.3 and coordinated expression. Eu J Human Gen 4: 308-315.
26. Hahnel E, Harvey J, Robbins P, Sterrett G, Hahnel R. (1994). Hormone-regulated genes (pS2, PIP, FAS) in breast cancer and nontumoral mammary tissue. Pathobiology 62: 82-89.
27. Hirota S, Ito A, Nagoshi J, Takeda M, Kurata A, Takatsuka Y et al. (1995). Expression of bone matrix protein messenger ribonucleic acids in human breast cancers. Possible involvement of osteopontin in development of calcifying foci. Lab Invest 72: 64-69.
28. Hoevel T, Macek R, Mundigl O, Swisshelm K, Kubbies M. (2002). Expression and targeting of the tight junction protein CLDN1 in CLDN1-negative human breast tumor cells. J Cell Physiol 191: 60-68.
29. Hurst LD, Pal C, Lercher MJ. (2004). The evolutionary dynamics of eukaryotic gene order. Nat Rev Genet 5: 299-310.
30. Jazaeri AA, Chandramouli GVR, Aprelikova O, Nuber UA, Sotiriou C, Liu ET et al. (2004). BRCA1-mediated repression of select X chromosome genes. J Translational Med 2: 32-39.
31. Jazaeri AA, Yee CJ, Sotiriou C, Brantley KR, Boyd J, Liu ET. (2002). Gene expression profiles of BRCA1-linked, BRCA2-linked, and sporadic ovarian cancers. J Natl Cancer Inst 94: 990-1000.
32. Koon N, Zaika A, Moskaluk CA, Frierson HF, Knuutila S, Powell SM et al. (2004). Clustering of molecular alterations in gastroesophageal carcinomas. Neoplasia 6: 143-149.
33. Kramer F, White K, Kubbies M, Swisshelm K, Weber BH. (2000). Genomic organisation of claudin 1 and its assessment in hereditary and sporadic breast cancer. Hum Genet 107: 249-256.
34. Lapointe J, Li C, Higgins JP, van de Rijn M, Bair E, Montgomery K et al. (2004). Gene expression profiling identifies clinically relevant subtypes of prostate cancer. Proc Natl Acad Sci USA 101: 811-816.
35. Lercher MJ, Urrutia AO, Hurst LD. (2002). Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet 31: 180-183.
36. Lopez-Boado YS, Tolivia J, Lopez-Otin C. (1994). Apolipoprotein D gene induction by retinoic acid is concomitant with growth arrest and cell differentiation in human breast cancer cells. J Biol Chem 269: 26871-26878.
37. Mashino K, Sadanaga N, Tanaka F, Yamaguchi H, Nagashima H, Inoue H et al. (2001). Expression of multiple cancer-testis antigen genes in gastrointestinal and breast carcinomas. Br J Cancer 85: 713-720.
38. May FEB, Westley BR. (1997). Trefoil proteins: their role in normal and malignant cells. J Path 183: 4-7.
39. McChesney PA, Aiyar SE, Lee OJ, Zaika A, Moskaluk C, Li R et al. (2006). Cofactor of BRCA1: a novel transcription factor regulator in upper gastrointestinal adenocarcinomas. Cancer Res 66: 1346-1353.
40. Mikhitarian K, Gillanders WE, Almeida JS, Hebert Martin R, Varela JC, Metcalf JS et al. (2005). An innovative microarray strategy identities informative molecular markers for the detection of micrometastatic breast cancer. Clin Cancer Res 11: 3697-3704.
41. Moggs JG, Murphy TC, Lim FL, Moore DJ, Stuckey R, Antrobus K et al. (2005). Anti-proliferative effect of estrogen in breast cancer cells that re-express ERa is mediated by aberrant regulation of cell cycle genes. J Mol Endocrinol 34: 535-551.
42. Morin PJ. (2005). Claudin proteins in human cancer: promising new targets for diagnosis and therapy. Cancer Res 65: 9603-9606.
43. Nakopoulou L, Giannopoulou I, Lazaris AC, Alexandrou P, Tsirmpa I, Markaki S et al. (2003). The favorable prognostic impact of tissue inhibitor of matrix metalloproteinases-1 protein overexpression in breast cancer cells. APMIS 111: 1027-1036.
44. Narita T, Yamaguchi Y, Yano K, Sugimoto S, Chanarat S, Wada T et al. (2003). Human transcription elongation factor NELF: identification of novel subunits and reconstitution of the functionally active complex. Mol Cell Biol 23: 1863-1873.
45. Pagani A, Sapino A, Eusebi V, Bergnolo P, Bussolati G. (1994). PIP/GCDFP-15 gene expression and apocrine differentiation in carcinomas of the breast. Virchows Arch 425: 459-465.
46. Palangat M, Renner DB, Price DH, Landick R. (2005). A negative elongation factor for human RNA polymerase II inhibits the anti-arrest transcript-cleavage factor TFIIS. Proc Natl Acad Sci USA 102: 15036-15041.
47. Poulsom R, Hanby AM, Lalani EN, Hauser F, Hoffmann W, Stamp GW. (1997). Intestinal trefoil factor (TFF 3) and pS2 (TFF 1), but not spasmolytic polypeptide (TFF 2) mRNAs are co-expressed in normal, hyperplastic, and neoplastic human breast epithelium. J Pathol 183: 30-38.
48. Rassart E, Bedirian A, Do Carmo S, Guinard O, Sirois J, Terrisse L et al. (2000). Apolipoprotein D. Biochim Biophys Acta 1482: 185-198.
49. Richardson AL, Wang ZC, De Nicolo A, Lu X, Brown M, Miron A et al. (2006). X chromosomal abnormalities in basal-like human breast cancer. Cancer Cell 9: 121-132.
50. Schmitt H, Wundrack I, Beck S, Gott P, Welter C, Shizuya H et al. (1996). A third P-domain polypeptide gene (TFF3), human intestinal trefoil factor, maps to 21q22.3. Cytogenet Cell Genet 72: 299-302.
51. Sheikh MS, Shao Z-M, Chen J-C, Fontana JA. (1993). Differential regulation of matrix Gla protein (MGP) gene expression by retinoic acid and estrogen in human breast carcinoma cells. Mol Cell Endocinol 92: 153-160.
52. Shetty A, Loddo M, Fanshawe T, Prevost AT, Sainsbury R, Williams GH et al. (2005). DNA replication licensing and cell cycle kinetics of normal and neoplastic breast. Br J Cancer 93: 1295-1300.
53. Singer GA, Lloyd AT, Huminiecki LB, Wolfe KH. (2005). Clusters of co-expressed genes in mammalian genomes are conserved by natural selection. Mol Biol Evol 22: 767-775.
54. Smid M, Wang Y, Klijn JG, Sieuwerts AM, Zhang Y, Atkins D et al. (2006). Genes associated with breast cancer metastatic to bone. J Clin Oncol 24: 2261-2267.
55. Spellman PT, Rubin GM. (2002). Evidence for large domains of similarly expressed genes in the Drosophila genome. J Biol 1: 5.
56. Tian W, Osawa M, Horiuchi H, Tomita Y. (2004). Expression of the prolactin-inducible protein (PIP/GCDFP15) gene in benign epithelium and adenocarcinoma of the prostate. Cancer Science 95: 491-495.
57. Toi M, Ishigaki S, Tominaga T. (1998). Metalloproteinases and tissue inhibitors of metalloproteinases. Breast Cancer Res Treat 52: 113-124.
58. Tokes AM, Kulka J, Paku S. (2005). Claudin-1, -3 and -4 proteins and mRNA expression in benign and malignant breast lesions: a research study. Breast Cancer Res 7: R296-R305.
59. Tomasetto C, Rockel N, Mattei MG, Fujita R, Rio MC. (1992). The gene encoding the human spasmolytic protein (SML1/hSP) is in 21q22.3, physically linked to the homologous breast cancer gene BCEI/pS2. Genomics 13: 1328-1330.
60. Vestergaard EM, Borre M, Poulsen SS, Nexo E, Torring N. (2006). Plasma levels of trefoil factors are increased in patients with advanced prostate cancer. Clin Cancer Res 12: 807-812.
61. Wada T, Takagi T, Yamaguchi Y, Ferdous A, Imai T, Hirose H et al. (1998). DSIF, a novel transcription elongation factor that regulates RNA polymeerase II processitivity, is composed of human Spt4 and Spt5 homologs. Genes Dev 12: 343-356.
62. Wu CH, Lee C, Fan R, Smith MJ, Yamaguchi Y, Handa H et al. (2005a). Molecular characterization of Drosophila NELF. Nucleic Acids Res 33: 1269-1279.
63. Wu C-H, Yamaguchi Y, Benjamin LR, Horvat-Gordon M, Washinsky J, Enerly E et al. (2003). NELF and DSIF cause promoter proximal pausing on the hsp70 promoter in Drosophila. Genes Dev 17: 1402-1414.
64. Wu Y, Ghosh S, Nishi Y, Yanase T, Nawata H, Hu Y-F. (2005b). The orphan nuclear receptors NURR1 and NGFIB modulate aromatase gene expression in ovarian granulosa cells: a possible mechanism for repression of aromatase expression upon luteinizing hormone surge. Endocrinology 146: 237-246.
65. Würtz SØ, Schrohl A-S, Sørensen NM, Lademann U, Christensen IJ, Mouridsen H et al. (2005). Tissue inhibitor of metalloproteinases-1 in breast cancer. Endocr Relat Cancer 12: 215-227.
66. Xu XQ, Emerald BS, Goh EL, Kannan N, Miller LD, Gluckman PD et al. (2005). Gene expression profiling to identify oncogenic determinants of autocrine human growth hormone in human mammary carcinoma. J Biol Chem 280: 23987-24003.
67. Yamaguchi Y, Takagi T, Wada T, Yano K, Furuya A, Sugimoto S et al. (1999). NELF, a multisubunit complex containing RD, cooperates with DSIF to repress RNA polymerase II elongation. Cell 97: 41-51.
68. Ye Q, Hu Y-F, Zhong H, Nye AC, Belmont AS, Li R. (2001). BRCA1-induced large-scale chromatin unfolding and allele-specific effects of cancer-predisposing mutations. J Cell Biol 155: 911-921.
69. Zheng L, Annab LA, Afshari CA, Lee W-H, Boyer TG. (2001). BRCA1 mediates ligand-independent transcriptional repression of the estrogen receptor. Proc Natl Acad Sci USA 98: 9587-9592.
70. Zhong H, Zhu J, Zhang H, Ding L, Sun Y, Huang C et al. (2004). COBRA1 inhibits AP-1 transcriptional activity in transfected cells. Biochem Biophys Res Commun 325: 568-573.
71. Zhou Y, Luoh SM, Zhang Y, Watanabe C, Wu TD, Ostland M et al. (2003). Genome-wide identification of chromosomal regions of increased tumor expression by transcriptome analysis. Cancer Res 63: 5781-5784.